Examples with StudyEventDefinitionBean org.akaza.openclinica.bean.managestudy.StudyEventDefinitionBean used on opensource projects

Example 11 with StudyEventDefinitionBean

use of org.akaza.openclinica.bean.managestudy.StudyEventDefinitionBean in project OpenClinica by OpenClinica.

the class AddCRFToDefinitionServlet method addCRF.

private void addCRF() throws Exception {
    FormProcessor fp = new FormProcessor(request);
    CRFVersionDAO vdao = new CRFVersionDAO(sm.getDataSource());
    ArrayList crfArray = new ArrayList();
    Map tmpCRFIdMap = (HashMap) session.getAttribute("tmpCRFIdMap");
    if (tmpCRFIdMap == null) {
        tmpCRFIdMap = new HashMap();
    }
    ArrayList crfsWithVersion = (ArrayList) session.getAttribute("crfsWithVersion");
    for (int i = 0; i < crfsWithVersion.size(); i++) {
        int id = fp.getInt("id" + i);
        String name = fp.getString("name" + i);
        String selected = fp.getString("selected" + i);
        if (!StringUtil.isBlank(selected) && "yes".equalsIgnoreCase(selected.trim())) {
            logger.info("one crf selected");
            CRFBean cb = new CRFBean();
            cb.setId(id);
            cb.setName(name);
            // only find active verions
            ArrayList versions = (ArrayList) vdao.findAllActiveByCRF(cb.getId());
            cb.setVersions(versions);
            crfArray.add(cb);
        } else {
            if (tmpCRFIdMap.containsKey(id)) {
                tmpCRFIdMap.remove(id);
            }
        }
    }
    for (Iterator tmpCRFIterator = tmpCRFIdMap.keySet().iterator(); tmpCRFIterator.hasNext(); ) {
        int id = (Integer) tmpCRFIterator.next();
        String name = (String) tmpCRFIdMap.get(id);
        boolean isExists = false;
        for (Iterator it = crfArray.iterator(); it.hasNext(); ) {
            CRFBean cb = (CRFBean) it.next();
            if (id == cb.getId()) {
                isExists = true;
            }
        }
        if (!isExists) {
            CRFBean cb = new CRFBean();
            cb.setId(id);
            cb.setName(name);
            // only find active verions
            ArrayList versions = (ArrayList) vdao.findAllActiveByCRF(cb.getId());
            cb.setVersions(versions);
            crfArray.add(cb);
        }
    }
    session.removeAttribute("tmpCRFIdMap");
    StudyParameterValueDAO spvdao = new StudyParameterValueDAO(sm.getDataSource());
    if (crfArray.size() == 0) {
        // no crf seleted
        addPageMessage(respage.getString("no_new_CRF_added"));
        StudyEventDefinitionBean sed = (StudyEventDefinitionBean) session.getAttribute("definition");
        String participateFormStatus = spvdao.findByHandleAndStudy(sed.getStudyId(), "participantPortal").getValue();
        request.setAttribute("participateFormStatus", participateFormStatus);
        sed.setCrfs(new ArrayList());
        session.setAttribute("definition", sed);
        forwardPage(Page.UPDATE_EVENT_DEFINITION1);
    } else {
        StudyEventDefinitionBean sed = (StudyEventDefinitionBean) session.getAttribute("definition");
        String participateFormStatus = spvdao.findByHandleAndStudy(sed.getStudyId(), "participantPortal").getValue();
        if (participateFormStatus.equals("enabled"))
            baseUrl();
        request.setAttribute("participateFormStatus", participateFormStatus);
        ArrayList edcs = (ArrayList) session.getAttribute("eventDefinitionCRFs");
        int ordinalForNewCRF = edcs.size();
        for (int i = 0; i < crfArray.size(); i++) {
            CRFBean crf = (CRFBean) crfArray.get(i);
            EventDefinitionCRFBean edcBean = new EventDefinitionCRFBean();
            edcBean.setCrfId(crf.getId());
            edcBean.setCrfName(crf.getName());
            edcBean.setStudyId(ub.getActiveStudyId());
            edcBean.setStatus(Status.AVAILABLE);
            edcBean.setStudyEventDefinitionId(sed.getId());
            edcBean.setStudyId(ub.getActiveStudyId());
            edcBean.setSourceDataVerification(SourceDataVerification.NOTREQUIRED);
            ordinalForNewCRF = ordinalForNewCRF + 1;
            edcBean.setOrdinal(ordinalForNewCRF);
            edcBean.setVersions(crf.getVersions());
            CRFVersionBean defaultVersion1 = (CRFVersionBean) vdao.findByPK(edcBean.getDefaultVersionId());
            edcBean.setDefaultVersionName(defaultVersion1.getName());
            ordinalForNewCRF++;
            edcs.add(edcBean);
        }
        session.setAttribute("eventDefinitionCRFs", edcs);
        ArrayList<String> sdvOptions = new ArrayList<String>();
        sdvOptions.add(SourceDataVerification.AllREQUIRED.toString());
        sdvOptions.add(SourceDataVerification.PARTIALREQUIRED.toString());
        sdvOptions.add(SourceDataVerification.NOTREQUIRED.toString());
        sdvOptions.add(SourceDataVerification.NOTAPPLICABLE.toString());
        request.setAttribute("sdvOptions", sdvOptions);
        addPageMessage(respage.getString("has_have_been_added_need_confirmation"));
        forwardPage(Page.UPDATE_EVENT_DEFINITION1);
    }
}

Example 12 with StudyEventDefinitionBean

use of org.akaza.openclinica.bean.managestudy.StudyEventDefinitionBean in project OpenClinica by OpenClinica.

the class DefineStudyEventServlet method confirmWholeDefinition.

/**
 * Validates the entire definition
 *
 * @throws Exception
 */
private void confirmWholeDefinition() throws Exception {
    Validator v = new Validator(request);
    FormProcessor fp = new FormProcessor(request);
    StudyEventDefinitionBean sed = (StudyEventDefinitionBean) session.getAttribute("definition");
    ArrayList eventDefinitionCRFs = new ArrayList();
    CRFVersionDAO cvdao = new CRFVersionDAO(sm.getDataSource());
    for (int i = 0; i < sed.getCrfs().size(); i++) {
        EventDefinitionCRFBean edcBean = new EventDefinitionCRFBean();
        int crfId = fp.getInt("crfId" + i);
        int defaultVersionId = fp.getInt("defaultVersionId" + i);
        edcBean.setCrfId(crfId);
        edcBean.setDefaultVersionId(defaultVersionId);
        CRFVersionBean defaultVersion = (CRFVersionBean) cvdao.findByPK(edcBean.getDefaultVersionId());
        edcBean.setDefaultVersionName(defaultVersion.getName());
        String crfName = fp.getString("crfName" + i);
        // String crfLabel = fp.getString("crfLabel" + i);
        edcBean.setCrfName(crfName);
        // edcBean.setCrfLabel(crfLabel);
        String requiredCRF = fp.getString("requiredCRF" + i);
        String doubleEntry = fp.getString("doubleEntry" + i);
        String decisionCondition = fp.getString("decisionCondition" + i);
        String electronicSignature = fp.getString("electronicSignature" + i);
        String participantForm = fp.getString("participantForm" + i);
        String allowAnonymousSubmission = fp.getString("allowAnonymousSubmission" + i);
        String submissionUrl = fp.getString("submissionUrl" + i);
        String offline = fp.getString("offline" + i);
        // issue 312 BWP<<
        String hiddenCrf = fp.getString("hiddenCrf" + i);
        // hideCRF is false by default in the bean
        if (!StringUtil.isBlank(hiddenCrf) && "yes".equalsIgnoreCase(hiddenCrf.trim())) {
            edcBean.setHideCrf(true);
        } else {
            edcBean.setHideCrf(false);
        }
        // >>
        String sdvOption = fp.getString("sdvOption" + i);
        if (!StringUtils.isBlank(sdvOption)) {
            int id = Integer.valueOf(sdvOption);
            edcBean.setSourceDataVerification(SourceDataVerification.getByCode(id));
        }
        if (!StringUtils.isBlank(requiredCRF) && "yes".equalsIgnoreCase(requiredCRF.trim())) {
            edcBean.setRequiredCRF(true);
        } else {
            edcBean.setRequiredCRF(false);
        }
        if (!StringUtils.isBlank(participantForm) && "yes".equalsIgnoreCase(participantForm.trim())) {
            edcBean.setParticipantForm(true);
        } else {
            edcBean.setParticipantForm(false);
        }
        // when participant form is not selected, force allow anonymous to be not selected
        if (edcBean.isParticipantForm() && !StringUtils.isBlank(allowAnonymousSubmission) && "yes".equalsIgnoreCase(allowAnonymousSubmission.trim())) {
            edcBean.setAllowAnonymousSubmission(true);
        } else {
            edcBean.setAllowAnonymousSubmission(false);
        }
        if (!StringUtils.isBlank(offline) && "yes".equalsIgnoreCase(offline.trim())) {
            edcBean.setOffline(true);
        } else {
            edcBean.setOffline(false);
        }
        if (!StringUtils.isBlank(doubleEntry) && "yes".equalsIgnoreCase(doubleEntry.trim())) {
            edcBean.setDoubleEntry(true);
        } else {
            edcBean.setDoubleEntry(false);
        }
        if (!StringUtils.isBlank(decisionCondition) && "yes".equalsIgnoreCase(decisionCondition.trim())) {
            edcBean.setDecisionCondition(true);
        } else {
            edcBean.setDecisionCondition(false);
        }
        if (!StringUtils.isBlank(electronicSignature) && "yes".equalsIgnoreCase(electronicSignature.trim())) {
            edcBean.setElectronicSignature(true);
        } else {
            edcBean.setElectronicSignature(false);
        }
        // also useful to protect from naughty submission not coming from our html form
        if (edcBean.isParticipantForm() && edcBean.isAllowAnonymousSubmission()) {
            edcBean.setSubmissionUrl(submissionUrl.trim());
        }
        ArrayList<CRFVersionBean> versions = cvdao.findAllByCRFId(crfId);
        edcBean.setVersions(versions);
        String nullString = "";
        // process null values
        ArrayList nulls = NullValue.toArrayList();
        for (int a = 0; a < nulls.size(); a++) {
            NullValue n = (NullValue) nulls.get(a);
            String myNull = fp.getString(n.getName().toLowerCase() + i);
            if (!StringUtils.isBlank(myNull) && "yes".equalsIgnoreCase(myNull.trim())) {
                nullString = nullString + n.getName().toUpperCase() + ",";
            }
        }
        edcBean.setNullValues(nullString);
        edcBean.setStudyId(ub.getActiveStudyId());
        eventDefinitionCRFs.add(edcBean);
    }
    StudyParameterValueDAO spvdao = new StudyParameterValueDAO(sm.getDataSource());
    String participateFormStatus = spvdao.findByHandleAndStudy(sed.getStudyId(), "participantPortal").getValue();
    request.setAttribute("participateFormStatus", participateFormStatus);
    if (participateFormStatus.equals("enabled"))
        baseUrl();
    request.setAttribute("participateFormStatus", participateFormStatus);
    request.setAttribute("eventDefinitionCRFs", eventDefinitionCRFs);
    // not used on page
    session.setAttribute("edCRFs", eventDefinitionCRFs);
    ArrayList<EventDefinitionCRFBean> edcsInSession = (ArrayList<EventDefinitionCRFBean>) session.getAttribute("edCRFs");
    int parentStudyId = sed.getStudyId();
    EventDefinitionCRFDAO edcdao = new EventDefinitionCRFDAO(sm.getDataSource());
    ArrayList<EventDefinitionCRFBean> eventDefCrfList = (ArrayList<EventDefinitionCRFBean>) edcdao.findAllActiveSitesAndStudiesPerParentStudy(parentStudyId);
    if (eventDefCrfList.size() != 0)
        validateSubmissionUrl(edcsInSession, eventDefCrfList, v);
    errors = v.validate();
    if (!errors.isEmpty()) {
        ArrayList<String> sdvOptions = new ArrayList<String>();
        sdvOptions.add(SourceDataVerification.AllREQUIRED.toString());
        sdvOptions.add(SourceDataVerification.PARTIALREQUIRED.toString());
        sdvOptions.add(SourceDataVerification.NOTREQUIRED.toString());
        sdvOptions.add(SourceDataVerification.NOTAPPLICABLE.toString());
        request.setAttribute("sdvOptions", sdvOptions);
        logger.info("has errors");
        session.setAttribute("eventDefinitionCRFs", eventDefinitionCRFs);
        request.setAttribute("formMessages", errors);
        forwardPage(Page.DEFINE_STUDY_EVENT4);
    }
    forwardPage(Page.DEFINE_STUDY_EVENT_CONFIRM);
}

Example 13 with StudyEventDefinitionBean

use of org.akaza.openclinica.bean.managestudy.StudyEventDefinitionBean in project OpenClinica by OpenClinica.

the class DefineStudyEventServlet method confirmDefinition2.

private void confirmDefinition2() throws Exception {
    FormProcessor fp = new FormProcessor(request);
    CRFVersionDAO vdao = new CRFVersionDAO(sm.getDataSource());
    ArrayList crfArray = new ArrayList();
    Map tmpCRFIdMap = (HashMap) session.getAttribute("tmpCRFIdMap");
    // trying to avoid NPE not sure why we would get it there ((tmpCRFIdMap.containsKey(id))), tbh
    if (tmpCRFIdMap == null) {
        tmpCRFIdMap = new HashMap();
    }
    ArrayList crfsWithVersion = (ArrayList) session.getAttribute("crfsWithVersion");
    for (int i = 0; i < crfsWithVersion.size(); i++) {
        int id = fp.getInt("id" + i);
        String name = fp.getString("name" + i);
        // String label = fp.getString("label" + i);
        String selected = fp.getString("selected" + i);
        // logger.info("selected:" + selected);
        if (!StringUtils.isBlank(selected) && "yes".equalsIgnoreCase(selected.trim())) {
            logger.debug("one crf selected");
            CRFBean cb = new CRFBean();
            cb.setId(id);
            cb.setName(name);
            // only find active verions
            ArrayList versions = (ArrayList) vdao.findAllActiveByCRF(cb.getId());
            cb.setVersions(versions);
            crfArray.add(cb);
        } else {
            if (tmpCRFIdMap.containsKey(id)) {
                tmpCRFIdMap.remove(id);
            }
        }
    }
    for (Iterator tmpCRFIterator = tmpCRFIdMap.keySet().iterator(); tmpCRFIterator.hasNext(); ) {
        int id = (Integer) tmpCRFIterator.next();
        String name = (String) tmpCRFIdMap.get(id);
        boolean isExists = false;
        for (Iterator it = crfArray.iterator(); it.hasNext(); ) {
            CRFBean cb = (CRFBean) it.next();
            if (id == cb.getId()) {
                isExists = true;
            }
        }
        if (!isExists) {
            CRFBean cb = new CRFBean();
            cb.setId(id);
            cb.setName(name);
            // only find active verions
            ArrayList versions = (ArrayList) vdao.findAllActiveByCRF(cb.getId());
            cb.setVersions(versions);
            crfArray.add(cb);
        }
    }
    session.removeAttribute("tmpCRFIdMap");
    StudyParameterValueDAO spvdao = new StudyParameterValueDAO(sm.getDataSource());
    if (crfArray.size() == 0) {
        // no crf seleted
        // addPageMessage("At least one CRF must be selected.");
        // request.setAttribute("crfs", crfs);
        addPageMessage(respage.getString("no_CRF_selected_for_definition_add_later"));
        StudyEventDefinitionBean sed = (StudyEventDefinitionBean) session.getAttribute("definition");
        sed.setCrfs(new ArrayList());
        String participateFormStatus = spvdao.findByHandleAndStudy(sed.getStudyId(), "participantPortal").getValue();
        request.setAttribute("participateFormStatus", participateFormStatus);
        session.setAttribute("definition", sed);
        request.setAttribute("eventDefinitionCRFs", new ArrayList());
        // not used on page
        session.setAttribute("edCRFs", new ArrayList());
        forwardPage(Page.DEFINE_STUDY_EVENT_CONFIRM);
    // forwardPage(Page.DEFINE_STUDY_EVENT2);
    } else {
        StudyEventDefinitionBean sed = (StudyEventDefinitionBean) session.getAttribute("definition");
        // crfs selected by user
        sed.setCrfs(crfArray);
        session.setAttribute("eventDefinitionCRFs", new ArrayList());
        session.setAttribute("definition", sed);
        String participateFormStatus = spvdao.findByHandleAndStudy(sed.getStudyId(), "participantPortal").getValue();
        if (participateFormStatus.equals("enabled"))
            baseUrl();
        request.setAttribute("participateFormStatus", participateFormStatus);
        ArrayList<String> sdvOptions = new ArrayList<String>();
        sdvOptions.add(SourceDataVerification.AllREQUIRED.toString());
        sdvOptions.add(SourceDataVerification.PARTIALREQUIRED.toString());
        sdvOptions.add(SourceDataVerification.NOTREQUIRED.toString());
        sdvOptions.add(SourceDataVerification.NOTAPPLICABLE.toString());
        request.setAttribute("sdvOptions", sdvOptions);
        forwardPage(Page.DEFINE_STUDY_EVENT3);
    }
}

Example 14 with StudyEventDefinitionBean

use of org.akaza.openclinica.bean.managestudy.StudyEventDefinitionBean in project OpenClinica by OpenClinica.

the class DefineStudyEventServlet method createStudyEventDefinition.

/**
 * Constructs study bean from request-first section
 *
 * @return
 */
private StudyEventDefinitionBean createStudyEventDefinition() {
    FormProcessor fp = new FormProcessor(request);
    StudyEventDefinitionBean sed = (StudyEventDefinitionBean) session.getAttribute("definition");
    try {
        String name = URLDecoder.decode(request.getParameter("name"), "UTF-8");
        String description = URLDecoder.decode(request.getParameter("description"), "UTF-8");
        sed.setName(name);
        sed.setDescription(description);
    } catch (Exception e) {
        // leaving old code here
        sed.setName(fp.getString("name"));
        sed.setDescription(fp.getString("description"));
    }
    // YW <<
    String temp = fp.getString("repeating");
    if ("true".equalsIgnoreCase(temp) || "1".equals(temp)) {
        sed.setRepeating(true);
    } else if ("false".equalsIgnoreCase(temp) || "0".equals(temp)) {
        sed.setRepeating(false);
    }
    // YW >>
    sed.setCategory(fp.getString("category"));
    sed.setType(fp.getString("type"));
    return sed;
}

Example 15 with StudyEventDefinitionBean

use of org.akaza.openclinica.bean.managestudy.StudyEventDefinitionBean in project OpenClinica by OpenClinica.

the class DefineStudyEventServlet method confirmDefinition1.

/**
 * Validates the first section of definition inputs
 *
 * @throws Exception
 */
private void confirmDefinition1() throws Exception {
    Validator v = new Validator(request);
    FormProcessor fp = new FormProcessor(request);
    v.addValidation("name", Validator.NO_BLANKS);
    v.addValidation("name", Validator.LENGTH_NUMERIC_COMPARISON, NumericComparisonOperator.LESS_THAN_OR_EQUAL_TO, 2000);
    v.addValidation("description", Validator.LENGTH_NUMERIC_COMPARISON, NumericComparisonOperator.LESS_THAN_OR_EQUAL_TO, 2000);
    v.addValidation("category", Validator.LENGTH_NUMERIC_COMPARISON, NumericComparisonOperator.LESS_THAN_OR_EQUAL_TO, 2000);
    errors = v.validate();
    session.setAttribute("definition", createStudyEventDefinition());
    if (errors.isEmpty()) {
        logger.debug("no errors in the first section");
        // logger.debug("actionName*******" + fp.getString("actionName"));
        // debugger.debug("pageNum*******" + fp.getString("pageNum"));
        CRFVersionDAO vdao = new CRFVersionDAO(sm.getDataSource());
        ArrayList crfArray = new ArrayList();
        /*
             * The tmpCRFIdMap will hold all the selected CRFs in the session
             * when the user is navigating through the list. This has been done
             * so that when the user moves to the next page of CRF list, the
             * selection made in the previous page doesn't get lost.
             */
        Map tmpCRFIdMap = (HashMap) session.getAttribute("tmpCRFIdMap");
        if (tmpCRFIdMap == null) {
            tmpCRFIdMap = new HashMap();
        }
        ArrayList crfsWithVersion = (ArrayList) session.getAttribute("crfsWithVersion");
        for (int i = 0; i < crfsWithVersion.size(); i++) {
            int id = fp.getInt("id" + i);
            String name = fp.getString("name" + i);
            String selected = fp.getString("selected" + i);
            if (!StringUtil.isBlank(selected) && "yes".equalsIgnoreCase(selected.trim())) {
                tmpCRFIdMap.put(id, name);
            } else {
                // deselected.
                if (tmpCRFIdMap.containsKey(id)) {
                    tmpCRFIdMap.remove(id);
                }
            }
        }
        session.setAttribute("tmpCRFIdMap", tmpCRFIdMap);
        EntityBeanTable table = fp.getEntityBeanTable();
        ArrayList allRows = CRFRow.generateRowsFromBeans(crfsWithVersion);
        String[] columns = { resword.getString("CRF_name"), resword.getString("date_created"), resword.getString("owner"), resword.getString("date_updated"), resword.getString("last_updated_by"), resword.getString("selected") };
        table.setColumns(new ArrayList(Arrays.asList(columns)));
        table.hideColumnLink(5);
        StudyEventDefinitionBean def1 = (StudyEventDefinitionBean) session.getAttribute("definition");
        HashMap args = new HashMap();
        args.put("actionName", "next");
        args.put("pageNum", "1");
        args.put("name", URLEncoder.encode(def1.getName(), "UTF-8"));
        args.put("repeating", new Boolean(def1.isRepeating()).toString());
        args.put("category", def1.getCategory());
        args.put("description", URLEncoder.encode(def1.getDescription(), "UTF-8"));
        args.put("type", def1.getType());
        table.setQuery("DefineStudyEvent", args, true);
        table.setRows(allRows);
        table.computeDisplay();
        request.setAttribute("table", table);
        forwardPage(Page.DEFINE_STUDY_EVENT2);
    } else {
        logger.debug("has validation errors in the first section");
        request.setAttribute("formMessages", errors);
        forwardPage(Page.DEFINE_STUDY_EVENT1);
    }
}